Origin IGS: gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 actaattcctcaatgtgttaaatgatttagacggctaaacgtctatacgtgggctagaatgacgaaaacgggggtattatgcaaattaataattttctaaaagtttatgaaagaaattaatgatcctgtattttattagtttgcggaggtaatcataaaaaacgcttttaaaaacgaccgcactttttcatcgatttatttatggattttatggatttcttctatgtaacgttaaagtgcgggtcgttttcgtgtatgatacggcttcattctttttcgaatttagatgaatctttctc Mask Tandem Repeat Region ================================================ gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Find is-nt database================================================ Query_seq: AA02539:AA02540|AA02539:AA02540:transcriptional activator:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:->->:1766990..1767288 299 gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02539:AA02540|AA02539:AA02540:transcriptional activator:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:->->:1766990..1767288 299 gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02539:AA02540|AA02539:AA02540:transcriptional activator:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:->->:1766990..1767288 299 gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 13 End: 102 ............ R F E F F F S A T D Y V F V V R V K V N C L L F G Y F G Y M ..................................................................................................................................................................................................... Protein_Len: 36 Strand: - Start: 3 End: 110 .. F S E D L N S F S H L R I M C S F S G C K L T V Y F F D M F D M F L D M ............................................................................................................................................................................................. gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 74 HP_score: -3.1 Tail_Score: -5.37345 Start: 124 End: 137 Full_Region: ATGAAAAAGTGCGGT CGTTT TTAA AAGCG TTTTTTATGATTACC ...........................................................................................................................CGTTTTTAAAAGCG.................................................................................................................................................................. Find igs database================================================ Query_seq: AA02539:AA02540|AA02539:AA02540:transcriptional activator:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:->->:1766990..1767288 299 gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Intra-Species Hit: Count: 1 Min: 1 Max: 299 Len: 299 Subject: aact_AA02539_AA02540|transcriptional activator:5-methyltetrahydropteroyltriglutamate- homocystein e methyltransferase|POSITIVE:POSITIVE|[1766990, 1767288]|299 HSP 1 e-value: 1.0E-168 bit: 593.0 Len: 299 Query Start:1 Query End:299 Subject Strand: POSITIVE Subject Start: 1 Subject End: 299 gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt gagaaagattcatctaaattcgaaaaagaatgaagccgtatcatacacgaaaacgacccgcactttaacgttacatagaagaaatccataaaatccataaataaatcgatgaaaaagtgcggtcgtttttaaaagcgttttttatgattacctccgcaaactaataaaatacaggatcattaatttctttcataaacttttagaaaattattaatttgcataatacccccgttttcgtcattctagcccacgtatagacgtttagccgtctaaatcatttaacacattgaggaattagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGAAAGAUUCAUCUAAAUUCGAAAAAGAAUGAAGCCGUAUCAUACACGAAAACGACCCGCACUUUAACGUUACAUAGAAGAAAUCCAUAAAAUCCAUAAAUAAAUCGAUGAAAAAGUGCGGUCGUUUUUAAAAGCGUUUUUUAUGAUUACCUCCGCAAACUAAUAAAAUACAGGAUCAUUAAUUUCUUUCAUAAACUUUUAGAAAAUUAUUAAUUUGCAUAAUACCCCCGUUUUCGUCAUUCUAGCCCACGUAUAGACGUUUAGCCGUCUAAAUCAUUUAACACAUUGAGGAAUUAGU ......(((((.((............(((((((....((((((((.((((((((((((.(((((((..((((...................................))))..))))))))))))))))......)))....))))).)))....(((((.((((((.....((((........))))(((.(((....))))))..)))))).)))))..................)))))))..........((((((......))))))................)).)))))... (-49.85) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUAAUUCCUCAAUGUGUUAAAUGAUUUAGACGGCUAAACGUCUAUACGUGGGCUAGAAUGACGAAAACGGGGGUAUUAUGCAAAUUAAUAAUUUUCUAAAAGUUUAUGAAAGAAAUUAAUGAUCCUGUAUUUUAUUAGUUUGCGGAGGUAAUCAUAAAAAACGCUUUUAAAAACGACCGCACUUUUUCAUCGAUUUAUUUAUGGAUUUUAUGGAUUUCUUCUAUGUAACGUUAAAGUGCGGGUCGUUUUCGUGUAUGAUACGGCUUCAUUCUUUUUCGAAUUUAGAUGAAUCUUUCUC ....((((.((.....((...(((...((((((......))))))..)))..))..((((..((((((.((((.......((((((((((((............((((..((....)).)))).........)))))))))))).(((((.((((((....(((......((((((((((((((((..(.((.((......)).))...((((((.....))))))....)..))))))).)))))))))))).))))))...))))).)))))))))).)))).)).))))....... (-66.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 472 157 113 186 143 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 446 158 113 155 113 aact:AA00766|5end_heat_shock_protein_B25.3_(HSP-70_cofactor)_527384..527614_POSITIVE 446 150 108 145 103 aact:AA00378|5end_leucine-responsive_regulatory_protein_(transcription_regulator)_254324..254554_POSITIVE 440 148 101 180 129 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 399 154 113 191 153 aact:AA01173|5end_VapD-homolog_803850..804080_POSITIVE 395 158 113 216 174 aact:AA02778|5end_hypothetical_protein_1942585..1942815_POSITIVE 391 158 112 147 104 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 391 158 112 46 3 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 389 156 114 196 149 aact:AA01385|5end_50S_ribosomal_protein_L9_935509..935739_POSITIVE 387 158 112 167 121 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 377 158 114 152 99 aact:AA01059|5end_orotate_phosphoribosyltransferase_735052..735282_POSITIVE 376 157 113 170 127 aact:AA01171|5end_LysA_activator_protein_802811..803041_POSITIVE 374 158 112 154 111 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 374 160 115 192 142 aact:AA01027|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_F_717676..717906_POSITIVE 374 158 115 163 123 aact:AA00356|5end_DNA-directed_RNA_polymerase,_beta'_chain_238937..239167_POSITIVE 371 157 113 194 143 aact:AA03003|5end_GTP-binding_membrane_protein_2096544..2096774_POSITIVE 371 157 113 73 22 aact:AA03002|5end_hypothetical_protein_2096423..2096653_POSITIVE 371 152 111 137 96 aact:AA00200|5end_thymidylate_synthase_138892..139122_POSITIVE 367 155 111 172 126 aact:AA01559|5end_RecA_regulatory_protein,_RecX_1045970..1046200_POSITIVE 366 144 110 124 90 aact:AA01744|5end_peptide_chain_release_factor_RF-2_1179373..1179603_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 462 150 109 41 1 aact:AA00377|3end_acetyl-CoA_acetyltransferase_(Beta-ketothiolase,3-ketoacyl-CoA_thiolase)_254300..254450_POSITIVE 440 148 101 140 89 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 422 146 113 151 118 aact:AA02507|3end_penicillin-insensitive_murein_endopeptidase_A_1741007..1741157_POSITIVE 399 154 113 108 70 aact:AA01172|3end_conserved_hypothetical_protein_803847..803997_POSITIVE 395 158 113 78 36 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 391 158 112 81 38 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 389 156 114 147 100 aact:AA01384|3end_hypothetical_protein_935540..935690_POSITIVE 385 159 114 125 73 aact:AA02253|3end_hypothetical_protein_1534786..1534936_POSITIVE 383 156 114 97 53 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 377 158 114 67 14 aact:AA01057|3end_DnaJ-like_protein_djlA_735047..735197_POSITIVE 374 158 118 38 1 aact:AA00764|3end_hemoglobin_binding_protein_A_527347..527497_POSITIVE 374 158 115 57 17 aact:AA00355|3end_DNA-directed_RNA_polymerase_beta_chain_(transcriptase_beta_chain)_238911..239061_POSITIVE 371 157 113 57 6 aact:AA03001|3end_probable_glycyl_radical_protein/pyruvate-formate_lyase_2096487..2096637_POSITIVE 367 155 111 87 41 aact:AA01557|3end_recombinase_A_1045965..1046115_POSITIVE 365 157 113 102 57 aact:AA01280|3end_groES_chaperonin_868530..868680_POSITIVE 364 157 113 96 50 aact:AA01718|3end_DNA_polymerase_III,_chi_subunit_1163316..1163466_POSITIVE 362 158 113 77 38 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 348 158 111 85 36 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 347 147 105 75 29 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 344 157 113 112 60 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE